Deep sequencing of influenza A virus from a human challenge study reveals a selective bottleneck and only limited intrahost genetic diversification

by Leonard, A.S, McClain, M.T, Smith, G.J.D, Wentworth, D.E, Halpin, R.A, Lin, X, Ransier, A, Stockwell, T.B, Das, S.R, Gilbert, A.S, Lambkin-Williams, R, Ginsburg, G.S, Woods, C.W, Koelle, K
Published 2020

Temporally structured metapopulation dynamics and persistence of influenza A H3N2 virus in humans

by Bahl, J., Nelson, M.I., Chan, K.H., Chen, R., Vijaykrishna, D., Halpin, R.A., Stockwell, T.B., Lin, X., Wentworth, D.E., Ghedin, E., Guan, Y., Peiris, J.S.M., Riley, S., Rambaut, A., Holmes, E.C., Smith, G.J.D.
Published 2016

The effective rate of influenza reassortment is limited during human infection

by Sobel Leonard A., McClain M.T., Smith G.J.D., Wentworth D.E., Halpin R.A., Lin X., Ransier A., Stockwell T.B., Das S.R., Gilbert A.S., Lambkin-Williams R., Ginsburg G.S., Woods C.W., Koelle K., Illingworth C.J.R.
Published 2019

Ecosystem Interactions Underlie the Spread of Avian Influenza A Viruses with Pandemic Potential

by Bahl J., Pham T.T., Hill N.J., Hussein I.T.M., Ma E.J., Easterday B.C., Halpin R.A., Stockwell T.B., Wentworth D.E., Kayali G., Krauss S., Schultz-Cherry S., Webster R.G., Webby R.J., Swartz M.D., Smith G.J.D., Runstadler J.A.
Published 2019

Influenza A Virus Migration and Persistence in North American Wild Birds

by Bahl, J., Krauss, S., Kühnert, D., Fourment, M., Raven, G., Pryor, S.P., Niles, L.J., Danner, A., Walker, D., Mendenhall, I.H., Su, Y.C.F., Dugan, V.G., Halpin, R.A., Stockwell, T.B., Webby, R.J., Wentworth, D.E., Drummond, A.J., Smith, G.J.D., Webster, R.G.
Published 2016

Influenza A virus evolution and spatio-temporal dynamics in eurasian wild birds: A phylogenetic and phylogeographical study of whole-genome sequence data

by Lewis, N.S, Verhagen, J.H, Javakhishvili, Z, Russell, C.A, Lexmond, P, Westgeest, K.B, Bestebroer, T.M, Halpin, R.A, Lin, X, Ransier, A, Fedorova, N.B, Stockwell, T.B, Latorre-Margalef, N, Olsen, B, Smith, G, Bahl, J, Wentworth, D.E, Waldenström, J, Fouchier, R.A.M, de Graaf, M
Published 2020